Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 140 of 175
Found at i:43261204 original size:9 final size:9
Alignment explanation
Indices: 43261192--43261600 Score: 246
Period size: 9 Copynumber: 47.9 Consensus size: 9
43261182 TTAAGTAAAC
43261192 TATGTAAGT
1 TATGTAAGT
43261201 TATGT-A-T
1 TATGTAAGT
**
43261208 TACATAAGT
1 TATGTAAGT
* *
43261217 TATTTATGTAT
1 TATGTAAG--T
*
43261228 TATGTAAGC
1 TATGTAAGT
43261237 TATGTAAGT
1 TATGTAAGT
43261246 TATGTAAGT
1 TATGTAAGT
**
43261255 GCTGT-A-T
1 TATGTAAGT
43261262 TATGTAAGT
1 TATGTAAGT
*
43261271 TATATAAGT
1 TATGTAAGT
* *
43261280 TATGTAGGC
1 TATGTAAGT
43261289 TATGT-A-T
1 TATGTAAGT
*
43261296 TATGCAAGT
1 TATGTAAGT
*
43261305 TATTTAAGT
1 TATGTAAGT
*
43261314 TGTGTAAGT
1 TATGTAAGT
43261323 GT-TGT-A-T
1 -TATGTAAGT
43261330 TATGTAAGT
1 TATGTAAGT
43261339 TATGT-A-T
1 TATGTAAGT
*
43261346 TATATAAGTTT
1 TATGTAAG--T
**
43261357 TATGTAAAA
1 TATGTAAGT
43261366 TATGTAAG-
1 TATGTAAGT
**
43261374 T-TGTATTT
1 TATGTAAGT
*
43261382 TATGAAAGT
1 TATGTAAGT
*
43261391 TATATAAGT
1 TATGTAAGT
* *
43261400 TATGTAGGC
1 TATGTAAGT
43261409 TATGT-A-T
1 TATGTAAGT
*
43261416 TATGCAAGT
1 TATGTAAGT
*
43261425 TATTTAAGT
1 TATGTAAGT
*
43261434 TGTGTAAGT
1 TATGTAAGT
43261443 GT-TGT-A-T
1 -TATGTAAGT
43261450 TATGTAAGT
1 TATGTAAGT
43261459 TATGT-A-T
1 TATGTAAGT
*
43261466 TATGTAAGA
1 TATGTAAGT
43261475 TATGTAAG-
1 TATGTAAGT
**
43261483 T-TGTATTT
1 TATGTAAGT
43261491 TATGTAAGT
1 TATGTAAGT
*
43261500 TCTGT-A-T
1 TATGTAAGT
43261507 TATG-AATGT
1 TATGTAA-GT
43261516 TATGTAAGT
1 TATGTAAGT
*
43261525 TGTGT-AG-
1 TATGTAAGT
* *
43261532 AATGTAAGC
1 TATGTAAGT
43261541 TATGTAAGT
1 TATGTAAGT
43261550 TATGTAAGT
1 TATGTAAGT
43261559 TATGTAAGT
1 TATGTAAGT
**
43261568 GGTGT-A-T
1 TATGTAAGT
43261575 TATGTAAGT
1 TATGTAAGT
43261584 TATGTAAGT
1 TATGTAAGT
43261593 TATGTAAG
1 TATGTAAG
43261601 CACTACACCA
Statistics
Matches: 302, Mismatches: 62, Indels: 72
0.69 0.14 0.17
Matches are distributed among these distances:
6 2 0.01
7 55 0.18
8 25 0.08
9 202 0.67
10 4 0.01
11 14 0.05
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:43261266 original size:34 final size:33
Alignment explanation
Indices: 43261223--43261600 Score: 268
Period size: 34 Copynumber: 11.9 Consensus size: 33
43261213 AAGTTATTTA
*
43261223 TGTATTATGTAAGCTATGTAAGTTATGTAAGTG
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTG
* * *
43261256 CTGTATTATGTAAGTTATATAAGTTATGTAGGCTA
1 -TGTATTATGTAAGTTATGTAAGTTATGTAAG-TG
* * *
43261291 TGTATTATGCAAGTTATTTAAGTTGTGTAAGTG
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTG
*
43261324 TTGTATTATGTAAGTTATGT-A-TTATATAA--G
1 -TGTATTATGTAAGTTATGTAAGTTATGTAAGTG
**
43261354 T-T-TTATGTAAAATATGTAAG-T-TGT-A---
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTG
* * * *
43261379 T-T-TTATGAAAGTTATATAAGTTATGTAGGCTA
1 TGTATTATGTAAGTTATGTAAGTTATGTAAG-TG
* * *
43261411 TGTATTATGCAAGTTATTTAAGTTGTGTAAGTG
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTG
43261444 TTGTATTATGTAAGTTATGT-A-TTATGTAA---
1 -TGTATTATGTAAGTTATGTAAGTTATGTAAGTG
** *
43261473 -G-A-TATGTAAG-T-TGTATTTTATGTAAGTTC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAG-TG
* *
43261502 TGTATTATG-AATGTTATGTAAGTTGTGTAGAATG
1 TGTATTATGTAA-GTTATGTAAGTTATGTA-AGTG
* *
43261536 T-AAGCTATGTAAGTTATGTAAGTTATGTAAGTGG
1 TGTA-TTATGTAAGTTATGTAAGTTATGTAAGT-G
43261570 TGTATTATGTAAGTTATGTAAGTTATGTAAG
1 TGTATTATGTAAGTTATGTAAGTTATGTAAG
43261601 CACTACACCA
Statistics
Matches: 272, Mismatches: 41, Indels: 62
0.73 0.11 0.17
Matches are distributed among these distances:
23 3 0.01
24 1 0.00
25 32 0.12
26 3 0.01
27 19 0.07
28 3 0.01
29 1 0.00
30 2 0.01
31 3 0.01
32 19 0.07
33 9 0.03
34 172 0.63
35 5 0.02
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (33 bp):
TGTATTATGTAAGTTATGTAAGTTATGTAAGTG
Found at i:43261285 original size:25 final size:25
Alignment explanation
Indices: 43261175--43261251 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
43261165 TGATATATAT
*
43261175 TTATGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAGCTATGTAAG
*
43261200 TTATGTATTACA-TAAG---T-T-AT
1 TTATGTATTA-AGTAAGCTATGTAAG
*
43261220 TTATGTATTATGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGCTATGTAAG
43261245 TTATGTA
1 TTATGTA
43261252 AGTGCTGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
20 15 0.37
21 1 0.02
22 1 0.02
23 1 0.02
24 1 0.02
25 21 0.51
26 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGCTATGTAAG
Found at i:43261361 original size:68 final size:68
Alignment explanation
Indices: 43261192--43261362 Score: 202
Period size: 68 Copynumber: 2.5 Consensus size: 68
43261182 TTAAGTAAAC
* *
43261192 TATGTAAGTTATGTATTACATAAGTTATTTATGTATTATGTAAGCTATGTAAGTTATGTAAGTGC
1 TATGTAAGTTATGTATTATATAAG-T-TTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGC
43261257 TGTAT
64 TGTAT
* * ** * * * *
43261262 TATGTAAGTTATATAAGTTATGT-AG-GCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGT
1 TATGTAAGTTATGT-A-TTATATAAGTTTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGC
43261325 TGTAT
64 TGTAT
43261330 TATGTAAGTTATGTATTATATAAGTTTTATGTA
1 TATGTAAGTTATGTATTATATAAGTTTTATGTA
43261363 AAATATGTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
66 5 0.06
67 3 0.04
68 55 0.66
70 13 0.16
71 3 0.04
72 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (68 bp):
TATGTAAGTTATGTATTATATAAGTTTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGCTG
TAT
Found at i:43261598 original size:25 final size:26
Alignment explanation
Indices: 43261221--43261600 Score: 189
Period size: 25 Copynumber: 15.0 Consensus size: 26
43261211 ATAAGTTATT
*
43261221 TATGTA-TTATGTAAGCTATGTAAGT
1 TATGTAGTTATGTAAGTTATGTAAGT
**
43261246 TATGTAAGTGCTGT-A-TTATGTAAGT
1 TATGT-AGTTATGTAAGTTATGTAAGT
* * *
43261271 TATATAAGTTATGTAGGCTATGT-A-T
1 TATGT-AGTTATGTAAGTTATGTAAGT
* * *
43261296 TATGCAAGTTATTTAAGTTGTGTAAGT
1 TATG-TAGTTATGTAAGTTATGTAAGT
43261323 GT-TGTA-TTATGTAAGTTATGT-A-T
1 -TATGTAGTTATGTAAGTTATGTAAGT
* **
43261346 TATATAAGTTTTATGTAAAATATGTAAG-
1 TATGT-AG--TTATGTAAGTTATGTAAGT
* * *
43261374 T-TGTATTTTATGAAAGTTATATAAGT
1 TATGTA-GTTATGTAAGTTATGTAAGT
* *
43261400 TATGTAGGCTATGT-A-TTATGCAAGT
1 TATGTA-GTTATGTAAGTTATGTAAGT
* *
43261425 TATTTAAGTTGTGTAAGTGT-TGT-A-T
1 TATGT-AGTTATGTAAGT-TATGTAAGT
*
43261450 TATGTAAGTTATGT-A-TTATGTAAGA
1 TATGT-AGTTATGTAAGTTATGTAAGT
**
43261475 TATGTAAG-T-TGTATTTTATGTAAGT
1 TATGT-AGTTATGTAAGTTATGTAAGT
*
43261500 TCTGTA-TTATG-AATGTTATGTAAGT
1 TATGTAGTTATGTAA-GTTATGTAAGT
* * *
43261525 TGTGTAG-AATGTAAGCTATGTAAGT
1 TATGTAGTTATGTAAGTTATGTAAGT
**
43261550 TATGTAAGTTATGTAAGTGGTGT-A-T
1 TATGT-AGTTATGTAAGTTATGTAAGT
43261575 TATGTAAGTTATGTAAGTTATGTAAG
1 TATGT-AGTTATGTAAGTTATGTAAG
43261601 CACTACACCA
Statistics
Matches: 265, Mismatches: 54, Indels: 70
0.68 0.14 0.18
Matches are distributed among these distances:
22 2 0.01
23 10 0.04
24 8 0.03
25 176 0.66
26 17 0.06
27 48 0.18
28 4 0.02
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (26 bp):
TATGTAGTTATGTAAGTTATGTAAGT
Found at i:43261744 original size:40 final size:40
Alignment explanation
Indices: 43261691--43261766 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 40
43261681 CGCTTTATGG
* * * *
43261691 AAATCGCCACTAAAGATTGAGCATTAGTGGCGTTTTTCAAA
1 AAATCGCCACTAAA-AATAAGCATTAGCGGCATTTTTCAAA
*
43261732 AAAT-GCCGCTAAAAATAAGCATTAGCGGCATTTTT
1 AAATCGCCACTAAAAATAAGCATTAGCGGCATTTTT
43261767 TTTAAAAACG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 18 0.60
40 8 0.27
41 4 0.13
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (40 bp):
AAATCGCCACTAAAAATAAGCATTAGCGGCATTTTTCAAA
Found at i:43261767 original size:40 final size:39
Alignment explanation
Indices: 43261710--43261786 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 39
43261700 CTAAAGATTG
* * *
43261710 AGCATTAGTGGCGTTTTTCAAAAAATGCCGCTAAAAATA
1 AGCATTAGCGGCGTTTTTCAAAAAACGCCGCGAAAAATA
* **
43261749 AGCATTAGCGGCATTTTTTTTAAAAACGCCGCGAAAAA
1 AGCATTAGCGGC-GTTTTTCAAAAAACGCCGCGAAAAA
43261787 CATAAGCCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
39 11 0.35
40 20 0.65
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (39 bp):
AGCATTAGCGGCGTTTTTCAAAAAACGCCGCGAAAAATA
Found at i:43261962 original size:42 final size:41
Alignment explanation
Indices: 43261822--43262019 Score: 222
Period size: 41 Copynumber: 4.8 Consensus size: 41
43261812 GACCTTTCGT
* ** *
43261822 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCCA-T
1 GGCTTTAGTGGCGTTTTTGGAAAAGCGCCGCTAATG-GTAGG
** ** *
43261863 TTCTTTAACGGCGTTTTTGGAAAAGCGCCGCTAATGCCT--G
1 GGCTTTAGTGGCGTTTTTGGAAAAGCGCCGCTAATG-GTAGG
** *
43261903 GTTTTTAGTGGCGTTTTTGGAAAAAGCGCCACTAATGGTAGG
1 GGCTTTAGTGGCGTTTTTGG-AAAAGCGCCGCTAATGGTAGG
43261945 GGCTTTAGTGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGTGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
* *
43261986 GGCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAA
1 GGCTTTAGTGGCGTTTTTGGAAAAGCGCCGCTAA
43262020 AAATATTTTA
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 17 0.12
41 102 0.74
42 19 0.14
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (41 bp):
GGCTTTAGTGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
Found at i:43262442 original size:7 final size:7
Alignment explanation
Indices: 43262432--43262464 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
43262422 GATTTAAGGT
43262432 TTAGGGG
1 TTAGGGG
43262439 TTAGGGG
1 TTAGGGG
43262446 TTAGGGG
1 TTAGGGG
43262453 TTTAGGGG
1 -TTAGGGG
43262461 TTAG
1 TTAG
43262465 ACATTATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:43262496 original size:8 final size:8
Alignment explanation
Indices: 43262483--43262511 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
43262473 AGGTTAATAG
43262483 TTAGGGAT
1 TTAGGGAT
43262491 TTAGGG-T
1 TTAGGGAT
43262498 TTAGGGAT
1 TTAGGGAT
43262506 TTAGGG
1 TTAGGG
43262512 GTCAGGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (8 bp):
TTAGGGAT
Found at i:43262503 original size:15 final size:15
Alignment explanation
Indices: 43262483--43262511 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43262473 AGGTTAATAG
43262483 TTAGGGATTTAGGGT
1 TTAGGGATTTAGGGT
43262498 TTAGGGATTTAGGG
1 TTAGGGATTTAGGG
43262512 GTCAGGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
TTAGGGATTTAGGGT
Found at i:43262757 original size:21 final size:21
Alignment explanation
Indices: 43262678--43262751 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
43262668 AGTTACTATT
* * *
43262678 TTAAGGTTTATGGAGTTTGGAT
1 TTAAGGTTTAAGG-GTTGGGAA
* * * * *
43262700 TTAGGGATTATGGATTGGGGA
1 TTAAGGTTTAAGGGTTGGGAA
*
43262721 TTATGGTTTAAGGGTTGGGAA
1 TTAAGGTTTAAGGGTTGGGAA
43262742 TTAAGGTTTA
1 TTAAGGTTTA
43262752 GAGGTTAATT
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 29 0.73
22 11 0.28
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (21 bp):
TTAAGGTTTAAGGGTTGGGAA
Found at i:43266345 original size:43 final size:43
Alignment explanation
Indices: 43266282--43266552 Score: 271
Period size: 43 Copynumber: 6.3 Consensus size: 43
43266272 TAAAAATGCT
* *
43266282 TTTAGTGGCGTTTTCT-ATAAAAGCGTCGCTAAAGGTCATGCTT-
1 TTTAGCGGCGTTTT-TGATAAAAGCGCCGCTAAAGGTCATG-TTC
* * * *
43266325 TTTAGCTGCGTTTGTGATAAAAGCGCCGCTAAAGATAATGTTTC
1 TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATG-TTC
* * *
43266369 TTTAGCGGCGTTTATGGGT-AAAGCGCTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTT-TTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * * *
43266412 TTTAGTGGTGTTTTTTATGAAAGCGCCGCTAAAGGTCCTGTTC
1 TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
43266455 TTTAGCGACG-TTTTAATAAAAGCGCCGCTAAAGGTCCTGTTC
1 TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATGTTC
** * * **
43266497 TTTAGCGGCGTTTTTTTTCAAAGCGGCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATGTTC
43266540 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
43266553 ATTTCTAAAA
Statistics
Matches: 189, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
42 42 0.22
43 115 0.61
44 30 0.16
45 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:43266496 original size:85 final size:87
Alignment explanation
Indices: 43266298--43266554 Score: 281
Period size: 85 Copynumber: 3.0 Consensus size: 87
43266288 GGCGTTTTCT
* * * *
43266298 ATAAAAGCGTCGCTAAAGGTCATGCTT-TTTAGCT-GCGTTTGTGATAAAAGCGCCGCTAAAGAT
1 ATAAAAGCGCCGCTAAAGGTCATG-TTCTTTAG-TGGCGTTTTTTATAAAAGCGCCGCTAAAGGT
* *
43266361 AATGTTTCTTTAGCGGCGTTTATGG
64 CATG-TTCTTTAGCGGCGTTTATGA
* * * * *
43266386 GT-AAAGCGCTGCTAAAGGTCATGTTCTTTAGTGGTGTTTTTTATGAAAGCGCCGCTAAAGGTCC
1 ATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCA
*
43266450 TGTTCTTTAGCGACGTTT-T-A
66 TGTTCTTTAGCGGCGTTTATGA
* * * * *
43266470 ATAAAAGCGCCGCTAAAGGTCCTGTTCTTTAGCGGCGTTTTTTTTCAAAGCGGCGCTAAAGGTCA
1 ATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCA
**
43266535 TGACCTTTAGCGGCGTTTAT
66 TGTTCTTTAGCGGCGTTTAT
43266555 TTCTAAAAAC
Statistics
Matches: 141, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
84 1 0.01
85 70 0.50
86 19 0.13
87 50 0.35
88 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (87 bp):
ATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCA
TGTTCTTTAGCGGCGTTTATGA
Found at i:43266746 original size:8 final size:8
Alignment explanation
Indices: 43266733--43266802 Score: 55
Period size: 8 Copynumber: 9.5 Consensus size: 8
43266723 AAGTTATGTG
43266733 TTATGTTA
1 TTATGTTA
43266741 TTATG-TA
1 TTATGTTA
43266748 TTATG-TA
1 TTATGTTA
43266755 --AT-TTA
1 TTATGTTA
43266760 TTATGTTA
1 TTATGTTA
*
43266768 TTAT-ATA
1 TTATGTTA
*
43266775 -TAAGTTA
1 TTATGTTA
*
43266782 TGTAAGTTA
1 T-TATGTTA
43266791 TTATGTTA
1 TTATGTTA
43266799 TTAT
1 TTAT
43266803 ATATAAGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
5 4 0.08
6 2 0.04
7 15 0.29
8 22 0.43
9 8 0.16
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (8 bp):
TTATGTTA
Found at i:43266782 original size:19 final size:19
Alignment explanation
Indices: 43266760--43266815 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
43266750 ATGTAATTTA
43266760 TTATGTTATTATATATAAG
1 TTATGTTATTATATATAAG
*
43266779 TTATG-TA--A-GT-T-A-
1 TTATGTTATTATATATAAG
43266791 TTATGTTATTATATATAAG
1 TTATGTTATTATATATAAG
43266810 TTATGT
1 TTATGT
43266816 AAGTGGTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
12 5 0.18
13 3 0.11
14 1 0.04
15 2 0.07
16 2 0.07
17 1 0.04
18 3 0.11
19 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (19 bp):
TTATGTTATTATATATAAG
Found at i:43266786 original size:31 final size:31
Alignment explanation
Indices: 43266748--43266819 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
43266738 TTATTATGTA
*
43266748 TTATGTAATTTATTATGTTATTATATATAAG
1 TTATGTAAGTTATTATGTTATTATATATAAG
43266779 TTATGTAAGTTATTATGTTATTATATATAAG
1 TTATGTAAGTTATTATGTTATTATATATAAG
43266810 TTATGTAAGT
1 TTATGTAAGT
43266820 GGTGTATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (31 bp):
TTATGTAAGTTATTATGTTATTATATATAAG
Found at i:43266796 original size:12 final size:12
Alignment explanation
Indices: 43266746--43266859 Score: 70
Period size: 12 Copynumber: 10.2 Consensus size: 12
43266736 TGTTATTATG
*
43266746 TATTATGTAATT
1 TATTATGTAAGT
*
43266758 TATTATGTTA-T
1 TATTATGTAAGT
*
43266769 TA-TATATAAG-
1 TATTATGTAAGT
43266779 --TTATGTAAGT
1 TATTATGTAAGT
*
43266789 TATTATGTTA-T
1 TATTATGTAAGT
*
43266800 TA-TATATAAGT
1 TATTATGTAAGT
* *
43266811 TATGTAAGT-GGT
1 TAT-TATGTAAGT
43266823 GTATTATGTAAG-
1 -TATTATGTAAGT
43266835 --TTATGTAAGT
1 TATTATGTAAGT
43266845 TATTATGTAAGT
1 TATTATGTAAGT
43266857 TAT
1 TAT
43266860 GCAAGCTTAT
Statistics
Matches: 77, Mismatches: 12, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
9 16 0.21
10 10 0.13
11 9 0.12
12 35 0.45
13 7 0.09
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (12 bp):
TATTATGTAAGT
Found at i:43266860 original size:9 final size:9
Alignment explanation
Indices: 43266775--43266847 Score: 61
Period size: 9 Copynumber: 8.9 Consensus size: 9
43266765 TTATTATATA
43266775 TAAGTTATG
1 TAAGTTATG
43266784 TAAGTTAT-
1 TAAGTTATG
*
43266792 TATGTTAT-
1 TAAGTTATG
*
43266800 T-A--TATA
1 TAAGTTATG
43266806 TAAGTTATG
1 TAAGTTATG
**
43266815 TAAGTGGTG
1 TAAGTTATG
43266824 T-A-TTATG
1 TAAGTTATG
43266831 TAAGTTATG
1 TAAGTTATG
43266840 TAAGTTAT
1 TAAGTTAT
43266848 TATGTAAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 5 0.10
8 10 0.20
9 32 0.63
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:43266876 original size:21 final size:21
Alignment explanation
Indices: 43266779--43266881 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
43266769 TATATATAAG
* *
43266779 TTATGTAAGTTAT-TATGTTA
1 TTATATAAGTTATGTAAGTTA
43266799 TTATATATAAGTTATGTAAGTGGTGTA
1 -T-TATATAAGTTATGTAA---GT-TA
*
43266826 TTATGTAAGTTATGTAAGTTA
1 TTATATAAGTTATGTAAGTTA
* *
43266847 TTATGTAAGTTATGCAAGCTTA
1 TTATATAAGTTATGTAAG-TTA
43266869 -TATATAAGCTTAT
1 TTATATAAG-TTAT
43266882 ATATAATTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
21 27 0.39
22 20 0.29
23 2 0.03
25 15 0.22
26 3 0.04
27 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (21 bp):
TTATATAAGTTATGTAAGTTA
Found at i:43266877 original size:12 final size:12
Alignment explanation
Indices: 43266862--43266887 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43266852 TAAGTTATGC
43266862 AAGCTTATATAT
1 AAGCTTATATAT
43266874 AAGCTTATATAT
1 AAGCTTATATAT
43266886 AA
1 AA
43266888 TTATTTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
AAGCTTATATAT
Found at i:43266987 original size:45 final size:45
Alignment explanation
Indices: 43266918--43267017 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
43266908 ATTAATACTA
* *
43266918 ATAAATTTTATTACTAATAAATTTAGAACACTTATTTAGAAAACTT
1 ATAAA-TTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
43266964 ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
1 ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
43267009 ATAAATTTA
1 ATAAATTTA
43267018 GAAAACTTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
45 47 0.90
46 5 0.10
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (45 bp):
ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
Found at i:43267001 original size:13 final size:13
Alignment explanation
Indices: 43266983--43267010 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43266973 ATACTAATAA
43266983 ATTTAGAAAACTT
1 ATTTAGAAAACTT
43266996 ATTTAGAAAACTT
1 ATTTAGAAAACTT
43267009 AT
1 AT
43267011 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:43267337 original size:21 final size:21
Alignment explanation
Indices: 43267307--43267346 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43267297 TCCAAAATTT
*
43267307 ATTGCGTTTTTGGCACGAATG
1 ATTGCCTTTTTGGCACGAATG
*
43267328 ATTGCCTTTTTTGCACGAA
1 ATTGCCTTTTTGGCACGAA
43267347 CGTAGCAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (21 bp):
ATTGCCTTTTTGGCACGAATG
Found at i:43269763 original size:7 final size:7
Alignment explanation
Indices: 43269751--43269796 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
43269741 GTAAGTATAT
43269751 CCCTAAC
1 CCCTAAC
43269758 CCCTAAC
1 CCCTAAC
*
43269765 CCCTAAT
1 CCCTAAC
*
43269772 CCTTAAC
1 CCCTAAC
*
43269779 CTCTAAC
1 CCCTAAC
43269786 CCCTAAC
1 CCCTAAC
43269793 CCCT
1 CCCT
43269797 CTTTTACAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.26, C:0.52, G:0.00, T:0.22
Consensus pattern (7 bp):
CCCTAAC
Found at i:43269928 original size:14 final size:14
Alignment explanation
Indices: 43269885--43269958 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
43269875 GACCCCGAGT
*
43269885 CTCTAAACCCTAAAT
1 CTCT-AACCCTAAAC
* * *
43269900 CACTAACTCTTAAC
1 CTCTAACCCTAAAC
43269914 CTCTAACCCTAAAC
1 CTCTAACCCTAAAC
*
43269928 CCCTAACCTCT-AA-
1 CTCTAACC-CTAAAC
43269941 CTACTAACCCCTAAAC
1 CT-CTAA-CCCTAAAC
43269957 CT
1 CT
43269959 TATTTAATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
13 1 0.02
14 33 0.73
15 9 0.20
16 2 0.04
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (14 bp):
CTCTAACCCTAAAC
Found at i:43269934 original size:21 final size:21
Alignment explanation
Indices: 43269901--43269954 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
43269891 ACCCTAAATC
* *
43269901 ACTAACTCTTAACCTCTAAC-
1 ACTAACCCCTAACCTCTAACT
*
43269921 CCTAAACCCCTAACCTCTAACT
1 ACT-AACCCCTAACCTCTAACT
43269943 ACTAACCCCTAA
1 ACTAACCCCTAA
43269955 ACCTTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (21 bp):
ACTAACCCCTAACCTCTAACT
Found at i:43270680 original size:81 final size:83
Alignment explanation
Indices: 43270504--43270702 Score: 230
Period size: 81 Copynumber: 2.4 Consensus size: 83
43270494 ATAAAATGTT
*
43270504 TTAGCGGCGCTTTCTT-AAAAACGCCGCTAAAAG-CCAGAGCATTAGCAGCGCATTTTAAAAAAC
1 TTAGCGGCGCTTT-TTCAAAAACGCCGCTAAAAGCCCAGAGCATTAACAGCGCATTTTAAAAAAC
* **
43270567 GCCGCTACAGCTCTTAGCA
65 GCCGCTAAAGCTCCGAGCA
* * **
43270586 TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAAGCCCA-ATC-TTAATGGCGC-TATTTAAAAAAC
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCCAGAGCATTAACAGCGCAT-TTTAAAAAAC
*
43270648 GCCGCTAAAAGC-CCGATCA
65 GCCGCT-AAAGCTCCGAGCA
* *
43270667 TTAGCGGCGCTTTTTCAAAAACACTGCTAAAAGCCC
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCC
43270703 CGAAAGGTCA
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
80 1 0.01
81 62 0.61
82 35 0.35
83 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (83 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCCAGAGCATTAACAGCGCATTTTAAAAAACG
CCGCTAAAGCTCCGAGCA
Found at i:43270702 original size:41 final size:41
Alignment explanation
Indices: 43270504--43270702 Score: 206
Period size: 41 Copynumber: 4.9 Consensus size: 41
43270494 ATAAAATGTT
*
43270504 TTAGCGGCGCTTTCTT-AAAAACGCCGCTAAAAGCCAGAGCA
1 TTAGCGGCGCTTT-TTAAAAAACGCCGCTAAAAGCCCGAGCA
* * * **
43270545 TTAGCAGCGCATTTTAAAAAACGCCGCT-ACAGCTCTTAGCA
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGC-CCGAGCA
* * * *
43270586 TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAAGCCCAATC-
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCCGAGCA
** * *
43270626 TTAATGGCGCTATTTAAAAAACGCCGCTAAAAGCCCGATCA
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCCGAGCA
* * *
43270667 TTAGCGGCGCTTTTTCAAAAACACTGCTAAAAGCCC
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCC
43270703 CGAAAGGTCA
Statistics
Matches: 131, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
40 42 0.32
41 85 0.65
42 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAAGCCCGAGCA
Found at i:43271025 original size:43 final size:43
Alignment explanation
Indices: 43270958--43271142 Score: 257
Period size: 43 Copynumber: 4.3 Consensus size: 43
43270948 TTTTAGAAAT
* *
43270958 AAACGCAGCTAAA-AGTCATGACCTTTAGCGGGGCTTTTCCCAA
1 AAACGCCGCTAAAGAG-CATGACCTTTAGCGGCGCTTTTCCCAA
* * *
43271001 AAACGCCGCTAAAGAGCATAACCTTTAGCGACGCTTTT-CCAC
1 AAACGCCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCAA
* *
43271043 AAACGCCGCTAAAGAGCATGACCTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCAA
* *
43271086 AAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCAA
*
43271129 AAACGCAGCTAAAG
1 AAACGCCGCTAAAG
43271143 GTCATGAAAA
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
42 38 0.30
43 86 0.68
44 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCAA
Found at i:43271110 original size:85 final size:87
Alignment explanation
Indices: 43270958--43271149 Score: 275
Period size: 85 Copynumber: 2.3 Consensus size: 87
43270948 TTTTAGAAAT
* * *
43270958 AAACGCAGCTAAA-AGTCATGACCTTTAGCGGGGCTTTTCCCAAAAACGCCGCTAAAGAGCATAA
1 AAACGCAGCTAAAGAGTCATGACCTTTAGCAGCGCTTTTCCCAAAAACGCCGCTAAAGAACATAA
*
43271022 CCTTTAGCGACGCTTTT-CCAC
66 CCTTTAGCGACGCTTTTCCCAA
* * * *
43271043 AAACGCCGCTAAAGAG-CATGACCTTTAGCAGCGCTTTTCCCACAAATGCCGCTAAAGAACATGA
1 AAACGCAGCTAAAGAGTCATGACCTTTAGCAGCGCTTTTCCCAAAAACGCCGCTAAAGAACATAA
*
43271107 CCTTTAGCGGCGCTTTTCCCAA
66 CCTTTAGCGACGCTTTTCCCAA
43271129 AAACGCAGCTAAAG-GTCATGA
1 AAACGCAGCTAAAGAGTCATGA
43271150 AAAATAAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
85 71 0.76
86 23 0.24
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (87 bp):
AAACGCAGCTAAAGAGTCATGACCTTTAGCAGCGCTTTTCCCAAAAACGCCGCTAAAGAACATAA
CCTTTAGCGACGCTTTTCCCAA
Found at i:43272021 original size:42 final size:42
Alignment explanation
Indices: 43271964--43272208 Score: 368
Period size: 42 Copynumber: 5.8 Consensus size: 42
43271954 GTTTACAAAC
* *
43271964 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
43272006 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
43272048 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * *
43272090 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
43272132 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* *
43272174 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
43272209 TTTTTTTTTC
Statistics
Matches: 186, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
41 4 0.02
42 179 0.96
43 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:43272112 original size:126 final size:126
Alignment explanation
Indices: 43271975--43272211 Score: 422
Period size: 126 Copynumber: 1.9 Consensus size: 126
43271965 AAAACGCCGT
*
43271975 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
43272040 GCTT-AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
66 GCTTAAG-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
43272101 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
1 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
** *
43272166 GCTTAAGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
66 GCTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
43272212 TTTTTTCTAA
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
126 104 0.98
127 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (126 bp):
TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
GCTTAAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
Found at i:43272240 original size:44 final size:42
Alignment explanation
Indices: 43271966--43272304 Score: 216
Period size: 42 Copynumber: 8.1 Consensus size: 42
43271956 TTACAAACAA
* * * * **** *
43271966 AAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* * * **** *
43272008 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* * ** *
43272050 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* * * * * **** *
43272092 AAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* *****
43272134 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGA-
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCG-TTTTTTTAC
* * *
43272176 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTTC
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCG-TTTTTTTAC
* *
43272219 TAATCGCCGCTAAAGAACATGTTCTTTAGTGGC--ATTTTTAC
1 -AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
* * *
43272260 AAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
43272302 AAA
1 AAA
43272305 AACGCCACTA
Statistics
Matches: 256, Mismatches: 36, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
40 30 0.12
41 6 0.02
42 187 0.73
43 4 0.02
44 29 0.11
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTTAC
Found at i:43272264 original size:84 final size:81
Alignment explanation
Indices: 43271964--43272295 Score: 349
Period size: 84 Copynumber: 4.0 Consensus size: 81
43271954 GTTTACAAAC
* * **
43271964 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGC-G-GCTT-TTAAAAAACGCCGCTAAAGATCATGT
43272029 TCTTTAGCGGCGCTTAGAA
63 TCTTTAGCGGCGCTTAGAA
* * *
43272048 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC-TTT-T-AAAAAACGCCGCTAAAGATCATGT
43272113 TCTTTAGCGGCGCTTAGAA
63 TCTTTAGCGGCGCTTAGAA
**
43272132 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCTTTTAA---AAAACGCCGCTAAAGATCATGT
* ****
43272197 TCTTTAGCGGCGTTTTTTTTT
63 TCTTTAGCGGCG--CTTAGAA
** * * * * * *
43272218 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTACAAACGCCGCAAAAGAACATGTTC
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC-TTTTAAAAAACGCCGCTAAAGATCATGTTC
*
43272283 TTTAGTGGCGCTT
65 TTTAGCGGCGCTT
43272296 TTATACAAAA
Statistics
Matches: 210, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
81 2 0.01
82 5 0.02
83 4 0.02
84 164 0.78
86 32 0.15
87 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (81 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCTTTTAAAAAACGCCGCTAAAGATCATGTTCT
TTAGCGGCGCTTAGAA
Found at i:43272264 original size:126 final size:126
Alignment explanation
Indices: 43271975--43272295 Score: 396
Period size: 126 Copynumber: 2.5 Consensus size: 126
43271965 AAAACGCCGT
* * *
43271975 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
1 TAAAGAACATGTTCTTTAGCGGCGATTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
43272040 GCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
66 GCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
* *
43272101 TAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
1 TAAAGAACATGTTCTTTAGCGGCGATTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
** * * ***** *
43272166 GCTTA-AGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTTCTAATCGCCGC
66 GCTTAGA-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAAAT-GCCAC
* *** * * *
43272229 TAAAGAACATGTTCTTTAGTGGC-ATT-TTTACAAACGCCGCAAAAGAACATGTTCTTTAGTGGC
1 TAAAGAACATGTTCTTTAGCGGCGATTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
43272292 GCTT
66 GCTT
43272296 TTATACAAAA
Statistics
Matches: 172, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
125 1 0.01
126 137 0.80
127 9 0.05
128 25 0.15
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (126 bp):
TAAAGAACATGTTCTTTAGCGGCGATTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC
GCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCAC
Found at i:43272387 original size:14 final size:14
Alignment explanation
Indices: 43272364--43272397 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
43272354 GCCCTCCTGT
*
43272364 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
43272378 AGCAACATTTCAAA
1 AGCAACATTTCAAA
43272392 AGCAAC
1 AGCAAC
43272398 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:43272689 original size:21 final size:21
Alignment explanation
Indices: 43272621--43272691 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
43272611 TTTTGCTCTG
* *
43272621 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
43272642 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
43272663 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
43272684 CTCTGCTT
1 CTCTGCTT
43272692 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:43278173 original size:11 final size:9
Alignment explanation
Indices: 43278141--43278287 Score: 65
Period size: 7 Copynumber: 17.0 Consensus size: 9
43278131 AATTGCAATG
43278141 GTAAGTTAT
1 GTAAGTTAT
43278150 GTAAGTTAT
1 GTAAGTTAT
43278159 GTAAGTTAAAT
1 GTAAGTT--AT
43278170 GTAAG-T-T
1 GTAAGTTAT
43278177 GTAAGTTAT
1 GTAAGTTAT
*
43278186 -TATGTATTAT
1 GTAAG--TTAT
43278196 GTAAG-T-T
1 GTAAGTTAT
43278203 GTAAGTTAAAT
1 GTAAGTT--AT
*
43278214 GT-A-TTGT
1 GTAAGTTAT
43278221 GTAAG-T-T
1 GTAAGTTAT
43278228 GTAAGTTAAAT
1 GTAAGTT--AT
43278239 GT-A-TTAT
1 GTAAGTTAT
43278246 GTAAG-T-T
1 GTAAGTTAT
43278253 GTAAGTTAT
1 GTAAGTTAT
*
43278262 -TATGTATTAT
1 GTAAG--TTAT
43278272 GTAAG-T-T
1 GTAAGTTAT
43278279 GTAAGTTAT
1 GTAAGTTAT
43278288 TATGTATTGT
Statistics
Matches: 107, Mismatches: 5, Indels: 52
0.65 0.03 0.32
Matches are distributed among these distances:
7 37 0.35
8 17 0.16
9 23 0.21
10 11 0.10
11 19 0.18
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:43278203 original size:26 final size:26
Alignment explanation
Indices: 43278168--43278575 Score: 565
Period size: 26 Copynumber: 16.1 Consensus size: 26
43278158 TGTAAGTTAA
43278168 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
43278194 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
43278219 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
43278244 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
43278270 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
43278296 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
43278321 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
43278347 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
43278373 GTGTAAGTTGTAAGTTATATTATGTATT
1 ATGTAAGTTGTAAG-T-TATTATGTATT
43278401 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
43278427 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
43278452 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
43278470 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
43278495 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
43278521 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
43278548 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
43278574 AT
1 AT
43278576 TTAATAAAAT
Statistics
Matches: 345, Mismatches: 22, Indels: 30
0.87 0.06 0.08
Matches are distributed among these distances:
18 12 0.03
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 113 0.33
26 162 0.47
27 17 0.05
28 33 0.10
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:43278499 original size:18 final size:18
Alignment explanation
Indices: 43278435--43278556 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
43278425 TTGTGTAAGT
43278435 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
43278453 TGTCAGTCAAATGTATTATGTAA
1 TGTAAGTTAAATG---TAT-T-A
43278476 GTTGTAAGTTAAATGTATTA
1 --TGTAAGTTAAATGTATTA
*
43278496 TGTAAGTTGTAA-GTTATTA
1 TGTAAGTT-AAATG-TATTA
*
43278515 TGT-A-TT--ATGTAAGTAA
1 TGTAAGTTAAATGT-A-TTA
43278531 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
43278549 TGTAAGTT
1 TGTAAGTT
43278557 GTAAGTTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 32
0.68 0.06 0.27
Matches are distributed among these distances:
14 2 0.02
15 2 0.02
16 5 0.06
17 3 0.04
18 33 0.41
19 11 0.14
20 5 0.06
21 4 0.05
22 4 0.05
23 1 0.01
25 11 0.14
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:43278769 original size:74 final size:74
Alignment explanation
Indices: 43278612--43278759 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
43278602 ACATTACTAA
43278612 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
43278677 TATTTTTTT
66 TATTTTTTT
43278686 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
43278751 TATTTTTTT
66 TATTTTTTT
43278760 ATATTTTATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (74 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTTT
Found at i:43278927 original size:13 final size:13
Alignment explanation
Indices: 43278909--43278979 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
43278899 ATTTATAATT
43278909 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
43278922 ATTTAAGTAACAT
1 ATTTAAGTAATAA
43278935 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
43278948 ATTTAAGTAACAT
1 ATTTAAGTAATAA
43278961 ATTTAAGTAATAA
1 ATTTAAGTAATAA
43278974 ATTTAA
1 ATTTAA
43278980 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:43278938 original size:26 final size:26
Alignment explanation
Indices: 43278908--43278979 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
43278898 TATTTATAAT
43278908 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
43278934 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
43278960 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
43278980 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:43279006 original size:17 final size:17
Alignment explanation
Indices: 43278984--43279027 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
43278974 ATTTAAACAA
43278984 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
43279001 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
43279018 ATTTTAGTAA
1 ATTTTAGTAA
43279028 TAAATTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:43282349 original size:23 final size:24
Alignment explanation
Indices: 43282323--43282373 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
43282313 TAATTTAAAT
43282323 ATTATCAA-TATTTAAAATTATT-A
1 ATTATCAATTATTT-AAATTATTCA
* *
43282346 ATTATTAATTATTTATATTATTCA
1 ATTATCAATTATTTAAATTATTCA
43282370 ATTA
1 ATTA
43282374 ATGTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTATCAATTATTTAAATTATTCA
Found at i:43282357 original size:14 final size:17
Alignment explanation
Indices: 43282338--43282373 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
43282328 CAATATTTAA
43282338 AATTA-TTA-ATTATT-
1 AATTATTTATATTATTC
43282352 AATTATTTATATTATTC
1 AATTATTTATATTATTC
43282369 AATTA
1 AATTA
43282374 ATGTATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.26
15 3 0.16
16 6 0.32
17 5 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTATATTATTC
Found at i:43283629 original size:190 final size:190
Alignment explanation
Indices: 43283306--43283666 Score: 616
Period size: 190 Copynumber: 1.9 Consensus size: 190
43283296 GCGTTTTTCA
43283306 ATAAGCGCCACTAATTCTAATATACATCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
1 ATAAGCGCCACTAATTCTAATATACATCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
* *
43283371 GCGCTTAACGTTAAGTGCCGCTAATACTGTTATGTAGCGGCGTTTTATTGTAAACGCCACTAATT
66 GCGCTTAACGTAAAGCGCCGCTAATACTGTTATGTAGCGGCGTTTTATTGTAAACGCCACTAATT
*
43283436 ATAGTATACATCAAGACCAAAACGTTGAGTTTTAGTTAAGAAATATAGCGGCGCTTTATC
131 ATAGTATACATCAAGACCAAAACGCTGAGTTTTAGTTAAGAAATATAGCGGCGCTTTATC
*
43283496 ATAAGCGCCACTAATTCTAATATACCTCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
1 ATAAGCGCCACTAATTCTAATATACATCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
* *
43283561 GCGCTTAAC-TGAAAGCGCCGCTAATACTGTTATTTAGCGGCGTTTTATTGTAAGCGCCACTAAT
66 GCGCTTAACGT-AAAGCGCCGCTAATACTGTTATGTAGCGGCGTTTTATTGTAAACGCCACTAAT
* * * *
43283625 TATAGTATACATCGATACCAAAACGCTGCGTTTTGGTTAAGA
130 TATAGTATACATCAAGACCAAAACGCTGAGTTTTAGTTAAGA
43283667 TTTTTGCGGC
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
189 1 0.01
190 159 0.99
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (190 bp):
ATAAGCGCCACTAATTCTAATATACATCAATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCG
GCGCTTAACGTAAAGCGCCGCTAATACTGTTATGTAGCGGCGTTTTATTGTAAACGCCACTAATT
ATAGTATACATCAAGACCAAAACGCTGAGTTTTAGTTAAGAAATATAGCGGCGCTTTATC
Found at i:43283746 original size:113 final size:112
Alignment explanation
Indices: 43283481--43283813 Score: 352
Period size: 114 Copynumber: 2.9 Consensus size: 112
43283471 TTAAGAAATA
* * * * *
43283481 TAGCGGCGCTTTATCATAAGCGCCACTAATTCTAATATACCTCAATACC-AAACTCTGCGTTTTG
1 TAGCGGCGTTTTATCATAAGCGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTG
* **
43283545 GTGT-GCATATCTTGCGGCGCTTAACTGAAAGCGCCGCTAATACTGTTATT
66 GT-TAG-AT-TTTTGCGGCGCTTAACACAAAGCGCCGCTAATAC-GTTATT
** *
43283595 TAGCGGCGTTTTATTGTAAGCGCCACTAATTATAGTATACATCGATACCAAAACGCTGCGTTTTG
1 TAGCGGCGTTTTATCATAAGCGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTG
** * *
43283660 GTTAAGATTTTTGCGGCGCTTCCCACAATGCGCCGCTATTAC-TTACTT
66 GTT-AGATTTTTGCGGCGCTTAACACAAAGCGCCGCTAATACGTTA-TT
* * * *
43283708 TAGCGGCGTTTTATCATAATCGCCACTAATTATTGTATACATCAATACAAAAACGATGCGTTTTG
1 TAGCGGCGTTTTATCATAAGCGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTG
* *
43283773 GTCTTGAGA-TTTTGCGGCGCATAAC-CAAAAACGCCGCTAAT
66 G--TT-AGATTTTTGCGGCGCTTAACAC-AAAGCGCCGCTAAT
43283814 TATGTTCTTT
Statistics
Matches: 183, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
112 3 0.02
113 62 0.34
114 94 0.51
115 23 0.13
116 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (112 bp):
TAGCGGCGTTTTATCATAAGCGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTG
GTTAGATTTTTGCGGCGCTTAACACAAAGCGCCGCTAATACGTTATT
Found at i:43286051 original size:24 final size:23
Alignment explanation
Indices: 43286020--43286065 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
43286010 TATTCACACG
43286020 TATTCTTA-CTTAATTTCAAATGC
1 TATTCTTACCTTAATTT-AAATGC
*
43286043 TATTACTTACCTTACTTTAAATG
1 TATT-CTTACCTTAATTTAAATG
43286066 TCCCATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.48
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGC
Found at i:43286772 original size:3 final size:3
Alignment explanation
Indices: 43286764--43286813 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
43286754 TTTTTACTTT
43286764 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43286811 ATA
1 ATA
43286814 TAAATATCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:43292062 original size:27 final size:27
Alignment explanation
Indices: 43292032--43292155 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
43292022 TCATCTCCTA
** *
43292032 GGGGTATAACAGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
43292059 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
43292086 GAGGTATTTCAGTCATTCTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
43292113 GTGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
43292140 GAGGTATTTCGGTCAT
1 GGGGTATTTCAGTCAT
43292156 AACAATGTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:43292147 original size:54 final size:54
Alignment explanation
Indices: 43292041--43292155 Score: 185
Period size: 54 Copynumber: 2.1 Consensus size: 54
43292031 AGGGGTATAA
* * *
43292041 CAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGGAGGTATTT
1 CAGTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
*
43292095 CAGTCATTCTACCCTATGGTGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
1 CAGTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
*
43292149 CGGTCAT
1 CAGTCAT
43292156 AACAATGTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (54 bp):
CAGTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGAGGTATTT
Found at i:43293085 original size:14 final size:15
Alignment explanation
Indices: 43293066--43293105 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
43293056 TCGACGTGAT
43293066 TTTTAGTTTTA-GAC
1 TTTTAGTTTTAGGAC
*
43293080 TTTTAGTTTTAGGAT
1 TTTTAGTTTTAGGAC
*
43293095 TTTTATTTTTA
1 TTTTAGTTTTA
43293106 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (15 bp):
TTTTAGTTTTAGGAC
Found at i:43293357 original size:28 final size:28
Alignment explanation
Indices: 43293323--43293387 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
43293313 CCAGAAAATT
43293323 ATTAACTGACCCCAACTGAATTAATTCG
1 ATTAACTGACCCCAACTGAATTAATTCG
* *
43293351 GTTAACTGACCCCAACTGATTTAATTCG
1 ATTAACTGACCCCAACTGAATTAATTCG
43293379 ATTAACTGA
1 ATTAACTGA
43293388 TTAATCTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (28 bp):
ATTAACTGACCCCAACTGAATTAATTCG
Found at i:43300252 original size:24 final size:23
Alignment explanation
Indices: 43300225--43300310 Score: 61
Period size: 24 Copynumber: 3.6 Consensus size: 23
43300215 TTATGTGCAT
43300225 GTATGTATTATAAAGTATATAAA
1 GTATGTATTATAAAGTATATAAA
*
43300248 GGTATATA-TATACAAGGGTATATAAA
1 -GTATGTATTATA-AA--GTATATAAA
* *
43300274 -TAAGTAAGATATAAAGTATAT-AA
1 GTATGT-A-TTATAAAGTATATAAA
*
43300297 GTATGTATTTTAAA
1 GTATGTATTATAAA
43300311 AATATATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
22 5 0.10
23 7 0.14
24 21 0.43
25 1 0.02
26 11 0.22
27 4 0.08
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (23 bp):
GTATGTATTATAAAGTATATAAA
Found at i:43302284 original size:87 final size:87
Alignment explanation
Indices: 43302174--43302335 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
43302164 AGACTTGATG
* * * * *
43302174 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
43302238 TCAGGGAGATAGGATAGCGTCTT
65 TCAGGGAGATAGGATAGCGTCTT
* * * * *
43302261 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
43302326 CAGGGAGATA
66 CAGGGAGATA
43302336 AGATCTGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGCGTCTT
Found at i:43302502 original size:213 final size:214
Alignment explanation
Indices: 43302135--43302601 Score: 672
Period size: 213 Copynumber: 2.2 Consensus size: 214
43302125 GTTATTTTCA
* * * * *
43302135 GTCTATTCCACTGCATCTTCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
43302200 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGCGTCTTCGAT
66 AGATAAGATCC----TTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGCATCTTCGAT
43302265 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
127 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
43302330 GAGATAAGATCTGAAATTCTCCG
192 GAGATAAGATCTGAAATTCTCCG
* * * * *
43302353 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATTTTCTCTACTGTAA-TTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
43302417 AGATAAGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTA-CTATCTTTGATC
66 AGATAAGATCCTTTTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TAGC-ATCTTCGATC
43302479 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGG
128 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGG
**
43302544 AGATAAGATCTGAAATTCTTTG
193 AGATAAGATCTGAAATTCTCCG
* * *
43302566 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTG
43302602 TATAATAAAC
Statistics
Matches: 226, Mismatches: 20, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
211 1 0.00
212 33 0.15
213 127 0.56
217 17 0.08
218 48 0.21
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (214 bp):
GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCCTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGCATCTTCGATCTGC
TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
TAAGATCTGAAATTCTCCG
Found at i:43302593 original size:46 final size:44
Alignment explanation
Indices: 43302186--43302597 Score: 248
Period size: 44 Copynumber: 9.5 Consensus size: 44
43302176 ATCTACTCTG
* * * * * *
43302186 CTGTAACCTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGAT-CTATGTCTTTGATCTGCTCCA
* * * *
43302230 CTGTAA-CTTCAGGGAGATAGGA--TAGCGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCTA-TGTCTTTGATCTGCTCCA
* * **
43302273 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* ** * *
43302317 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTCCGGTCTACTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---ATGTCTTTGATCTGCTCCA
* * * *
43302363 CTGTAACCTCAGGGAAATAAGACCTGATGTGATTT--TCT-CT--A
1 CTGTAATCTCAGGGAGATAAGATCT-ATGT-CTTTGATCTGCTCCA
* * *
43302404 CTGTAAT-TCAGAGAGATAAGATC-----CTTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* * * * *
43302442 TTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCTA-TGTCTTTGATCTGCTCCA
* * **
43302486 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* * *
43302530 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---ATGTCTTTGATCTGCTCCA
43302576 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
43302598 CCTGTATAAT
Statistics
Matches: 283, Mismatches: 58, Indels: 52
0.72 0.15 0.13
Matches are distributed among these distances:
33 3 0.01
35 2 0.01
36 2 0.01
38 7 0.02
39 12 0.04
40 13 0.05
41 8 0.03
42 1 0.00
43 32 0.11
44 131 0.46
45 3 0.01
46 67 0.24
47 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
Found at i:43314286 original size:19 final size:19
Alignment explanation
Indices: 43314262--43314299 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
43314252 TTTTTCTAAC
43314262 ACGTTGTGCATAGAATTGG
1 ACGTTGTGCATAGAATTGG
43314281 ACGTTGTGCATAGAATTGG
1 ACGTTGTGCATAGAATTGG
43314300 TTTCCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
ACGTTGTGCATAGAATTGG
Found at i:43322970 original size:43 final size:45
Alignment explanation
Indices: 43322922--43323007 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 45
43322912 TTATACCTGG
*
43322922 ATACATAGCTAATACCTACATTCG-A-ATATATATACATATTCGA
1 ATACATAGCTAATACATACATTCGAATATATATATACATATTCGA
43322965 ATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 ATACATAGCTAATACATACATTCGAATATATATATACATATTC
43323008 TTCATATACA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 23 0.57
44 1 0.03
45 16 0.40
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (45 bp):
ATACATAGCTAATACATACATTCGAATATATATATACATATTCGA
Found at i:43322990 original size:25 final size:25
Alignment explanation
Indices: 43322922--43322992 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
43322912 TTATACCTGG
*
43322922 ATACATAGCTAATACCTACATTCGA
1 ATACATAGCTAATACATACATTCGA
43322947 AT--ATA--T-ATACAT--ATTCGA
1 ATACATAGCTAATACATACATTCGA
43322965 ATACATAGCTAATACATACATTCGA
1 ATACATAGCTAATACATACATTCGA
43322990 ATA
1 ATA
43322993 TATATATACA
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
18 8 0.21
20 8 0.21
21 1 0.03
22 1 0.03
23 9 0.24
25 11 0.29
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (25 bp):
ATACATAGCTAATACATACATTCGA
Found at i:43323003 original size:18 final size:18
Alignment explanation
Indices: 43322938--43323003 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
43322928 AGCTAATACC
43322938 TACATTCGAATATATATA
1 TACATTCGAATATATATA
* *
43322956 CATATTCGAATACATAGCTAATACA
1 TACATTCGAAT--ATA--T-AT--A
43322981 TACATTCGAATATATATA
1 TACATTCGAATATATATA
43322999 TACAT
1 TACAT
43323004 ATTCTTCATA
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
18 15 0.41
20 5 0.14
21 1 0.03
22 1 0.03
23 5 0.14
25 10 0.27
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (18 bp):
TACATTCGAATATATATA
Found at i:43323402 original size:41 final size:41
Alignment explanation
Indices: 43323356--43323457 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
43323346 ACCAGCTTTT
* * *
43323356 AGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATCA
* * * *
43323397 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATCA
* *
43323438 AGCCTACTAGACGTAAAGTC
1 AGCCTGCTAGACCTAAAGTC
43323458 TGTATTACAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATCA
Found at i:43323458 original size:41 final size:41
Alignment explanation
Indices: 43323385--43323464 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
43323375 CCGAAATGTA
* *
43323385 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTACTAGACGTAAAGTCTGAATTATT
*
43323426 TCACCGGCATCAAGCCTACTAGACGTAAAGTCTGTATTA
1 TCACCGGCATCAAGCCTACTAGACGTAAAGTCTGAATTA
43323465 CATTCGCTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTACTAGACGTAAAGTCTGAATTATT
Found at i:43327094 original size:22 final size:22
Alignment explanation
Indices: 43327029--43327086 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
43327019 TAAGCTTGCT
*
43327029 AGGCACAAAGCCTGAATAACAC
1 AGGCACAAAGCCTAAATAACAC
* *
43327051 AGGTACAAAGACTAAATAACAC
1 AGGCACAAAGCCTAAATAACAC
*
43327073 CGGCACAAAGCCTA
1 AGGCACAAAGCCTA
43327087 CTAGACACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.10
Consensus pattern (22 bp):
AGGCACAAAGCCTAAATAACAC
Found at i:43327107 original size:38 final size:38
Alignment explanation
Indices: 43327055--43327185 Score: 172
Period size: 38 Copynumber: 3.4 Consensus size: 38
43327045 TAACACAGGT
* * * *
43327055 ACAAAGACTAAATAACACCGGCACAAAGCCTACTAGAC
1 ACAAAGCCTGAATAACACCGGCACAAAGCCTGCTAGGC
*** *
43327093 ACAAAGCCTGAATAACACTACCACAAAGCCTGTTAGGC
1 ACAAAGCCTGAATAACACCGGCACAAAGCCTGCTAGGC
*
43327131 ACAAAGCCTGAATAACACCGGCACGAAGCCTGCTAGGC
1 ACAAAGCCTGAATAACACCGGCACAAAGCCTGCTAGGC
*
43327169 ATAAAGCCTGAATAACA
1 ACAAAGCCTGAATAACA
43327186 ATATAATTCA
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 79 1.00
ACGTcount: A:0.42, C:0.28, G:0.17, T:0.13
Consensus pattern (38 bp):
ACAAAGCCTGAATAACACCGGCACAAAGCCTGCTAGGC
Found at i:43340591 original size:28 final size:28
Alignment explanation
Indices: 43340532--43340594 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
43340522 TTAGAAAAAT
* **
43340532 TAAAAAATTCTAAATAAATAAATATTGT
1 TAAAAAATTCTAAATAAATAAATAATAC
*
43340560 TAAAAAATTCT-AATATATAAATAAATAC
1 TAAAAAATTCTAAATAAATAAAT-AATAC
43340588 TAAAAAA
1 TAAAAAA
43340595 ATATTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 10 0.33
28 20 0.67
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (28 bp):
TAAAAAATTCTAAATAAATAAATAATAC
Found at i:43343835 original size:29 final size:29
Alignment explanation
Indices: 43343789--43343852 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
43343779 TGTTGACGCT
* *
43343789 ACACGGCCATGTGTTGGACCGTGTGAGAC
1 ACACGGCCATATGCTGGACCGTGTGAGAC
*
43343818 ACACGGCCGTATGCTGGACCGTGTGAGAC
1 ACACGGCCATATGCTGGACCGTGTGAGAC
43343847 ACACGG
1 ACACGG
43343853 GCGTGTGAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.22, C:0.27, G:0.34, T:0.17
Consensus pattern (29 bp):
ACACGGCCATATGCTGGACCGTGTGAGAC
Found at i:43347647 original size:9 final size:9
Alignment explanation
Indices: 43347633--43347663 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
43347623 GTTAAACGAA
43347633 TCGAGTTAT
1 TCGAGTTAT
*
43347642 TCGAGTTAA
1 TCGAGTTAT
43347651 TCGAGTTAT
1 TCGAGTTAT
43347660 TCGA
1 TCGA
43347664 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:43348000 original size:30 final size:30
Alignment explanation
Indices: 43347947--43348005 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43347937 AAACCTTTTA
*
43347947 TTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
43347976 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
43348006 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:43348674 original size:5 final size:5
Alignment explanation
Indices: 43348664--43348699 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
43348654 GAACAGATAT
43348664 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
43348700 ATTCCATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:43349623 original size:20 final size:20
Alignment explanation
Indices: 43349598--43349694 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
43349588 TTTTCAAAAA
*
43349598 TAATATTATTTTAATAGATT
1 TAATATTAATTTAATAGATT
*
43349618 TAATATTAAATT-A-A-ATT
1 TAATATTAATTTAATAGATT
* *
43349635 TAATACTTATCTTATACATAAATAT
1 TAATA-TTA-ATT-TA-ATAGAT-T
*
43349660 T-CTATTAATTTAATAGATT
1 TAATATTAATTTAATAGATT
43349679 TAATATTAAATTTAAT
1 TAATATT-AATTTAAT
43349695 CTAATAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
17 8 0.14
18 4 0.07
19 4 0.07
20 20 0.34
21 10 0.17
22 3 0.05
23 4 0.07
24 4 0.07
25 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
TAATATTAATTTAATAGATT
Found at i:43349736 original size:49 final size:49
Alignment explanation
Indices: 43349626--43349744 Score: 120
Period size: 49 Copynumber: 2.4 Consensus size: 49
43349616 TTTAATATTA
* * *
43349626 AATTAAAT-TTAATACTT-ATCTTATACATAAATATTCTATTAATTTAAT
1 AATTAAATATTAA-ATTTAATCTAATACATAAATATTATATTAATTTAAT
* *
43349674 AGATTTAATATTAAATTTAATCTAATA-ATAAGTATTATATTAATTTAAT
1 A-ATTAAATATTAAATTTAATCTAATACATAAATATTATATTAATTTAAT
*
43349723 -ATTAAAGTGATTAAGTTTAATC
1 AATTAAA-T-ATTAAATTTAATC
43349745 ATAGCTAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
47 5 0.08
48 2 0.03
49 41 0.69
50 11 0.19
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (49 bp):
AATTAAATATTAAATTTAATCTAATACATAAATATTATATTAATTTAAT
Found at i:43360456 original size:14 final size:15
Alignment explanation
Indices: 43360431--43360461 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
43360421 TTTATCCTTT
43360431 TTTTTATATGAACAA
1 TTTTTATATGAACAA
43360446 TTTTTAT-TGAACAA
1 TTTTTATATGAACAA
43360460 TT
1 TT
43360462 ATGTATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
TTTTTATATGAACAA
Found at i:43378103 original size:20 final size:20
Alignment explanation
Indices: 43378078--43378132 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
43378068 TGTGGTTCAA
*
43378078 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
43378098 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
43378118 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
43378133 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:43378516 original size:45 final size:45
Alignment explanation
Indices: 43378465--43378658 Score: 271
Period size: 45 Copynumber: 4.3 Consensus size: 45
43378455 GAACGGCATG
* * *
43378465 AAATTAAGGAAGTATTTGACCAACATAATGCATAATTTATGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* *
43378510 AAATTAAGGAAGCACTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
43378555 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * *
43378600 AATTTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
43378645 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
43378659 CCATGGCCGA
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:43379384 original size:64 final size:64
Alignment explanation
Indices: 43379283--43379429 Score: 267
Period size: 64 Copynumber: 2.3 Consensus size: 64
43379273 TGTTTTGTAA
*
43379283 AAAAAAATCAAAAAAAAAAATTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCG
1 AAAAAAATC--AAAAAAAAATTTGCCTACAGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCG
43379348 T
64 T
43379349 AAAAAAATCAAAAAAAAATTTGCCTACAGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGT
1 AAAAAAATCAAAAAAAAATTTGCCTACAGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGT
43379413 AAAAAAATCAAAAAAAA
1 AAAAAAATCAAAAAAAA
43379430 TCAAAAAAAA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
64 71 0.89
66 9 0.11
ACGTcount: A:0.52, C:0.16, G:0.18, T:0.14
Consensus pattern (64 bp):
AAAAAAATCAAAAAAAAATTTGCCTACAGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGT
Found at i:43379440 original size:11 final size:10
Alignment explanation
Indices: 43379413--43379439 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
43379403 AAAGATCCGT
43379413 AAAAAAATCA
1 AAAAAAATCA
43379423 AAAAAAATCA
1 AAAAAAATCA
43379433 AAAAAAA
1 AAAAAAA
43379440 AATTTTGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:43379465 original size:76 final size:74
Alignment explanation
Indices: 43379349--43379495 Score: 240
Period size: 76 Copynumber: 2.0 Consensus size: 74
43379339 AAAGATCCGT
*
43379349 AAAAAAATCAAAAAAAAATTTGCCTACAGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGTA
1 AAAAAAATCAAAAAAAAATTTGCCTACAGTCTAGGCGCGGACGAAAAGAACGTAAAAGATCCGTA
43379414 AAAAAATCA
66 AAAAAATCA
* * *
43379423 AAAAAAATCAAAAAAAAAATTTTGCCTACGGTCTTGGTGCGGACGAAAAGAACGTAAAAGATCCG
1 AAAAAAATC-AAAAAAAAA-TTTGCCTACAGTCTAGGCGCGGACGAAAAGAACGTAAAAGATCCG
43379488 TAAAAAAA
64 TAAAAAAA
43379496 AAGAGAAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 9 0.13
75 9 0.13
76 49 0.73
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.16
Consensus pattern (74 bp):
AAAAAAATCAAAAAAAAATTTGCCTACAGTCTAGGCGCGGACGAAAAGAACGTAAAAGATCCGTA
AAAAAATCA
Found at i:43381854 original size:20 final size:20
Alignment explanation
Indices: 43381829--43381883 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
43381819 TGTGGTTCAA
*
43381829 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
43381849 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
43381869 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
43381884 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:43382267 original size:45 final size:45
Alignment explanation
Indices: 43382216--43382409 Score: 271
Period size: 45 Copynumber: 4.3 Consensus size: 45
43382206 GAACGGCATG
* * *
43382216 AAATTAAGGAAGTATTTGACCAACATAATGCATAATTTATGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* *
43382261 AAATTAAGGAAGCACTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
43382306 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * *
43382351 AATTTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
43382396 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
43382410 CCATGGCCGA
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:43397467 original size:2 final size:2
Alignment explanation
Indices: 43397462--43397518 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
43397452 GTGTGATATA
43397462 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
43397504 TA TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG T
43397519 TCAAATTTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:43410122 original size:17 final size:17
Alignment explanation
Indices: 43410096--43410128 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43410086 CATCCATGCA
*
43410096 AACTGTGAGCTCACTAG
1 AACTGAGAGCTCACTAG
43410113 AACTGAGAGCTCACTA
1 AACTGAGAGCTCACTA
43410129 ATATTGCGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (17 bp):
AACTGAGAGCTCACTAG
Found at i:43413835 original size:17 final size:17
Alignment explanation
Indices: 43413778--43413837 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
43413768 TATGAACTGC
*
43413778 GAGCTCACCAAA-TATGC
1 GAGCTCACCAAACT-TGA
*
43413795 GAGCTCACCAAGACTTTA
1 GAGCTCACCAA-ACTTGA
*
43413813 -ACCTCACCAAACTTGA
1 GAGCTCACCAAACTTGA
43413829 GAGCTCACC
1 GAGCTCACC
43413838 TATGAGTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 5 0.14
17 27 0.77
18 2 0.06
19 1 0.03
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.18
Consensus pattern (17 bp):
GAGCTCACCAAACTTGA
Found at i:43423739 original size:22 final size:23
Alignment explanation
Indices: 43423714--43423758 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
43423704 ACCACAAATT
43423714 CTTTATTTAAAA-TGTAAATAAG
1 CTTTATTTAAAATTGTAAATAAG
*
43423736 CTTTATTTAAAATTGTGAATAAG
1 CTTTATTTAAAATTGTAAATAAG
43423759 AAAGACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (23 bp):
CTTTATTTAAAATTGTAAATAAG
Found at i:43428993 original size:28 final size:29
Alignment explanation
Indices: 43428961--43429019 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
43428951 TTAAAAAATG
* *
43428961 ACAAGAATAAG-AAAATGCAGAAAAATTA
1 ACAAGAACAAGAAAAAAGCAGAAAAATTA
* *
43428989 ACAAGAACCAGAAAAAAGTAGAAAAATTA
1 ACAAGAACAAGAAAAAAGCAGAAAAATTA
43429018 AC
1 AC
43429020 CCTACAGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.64, C:0.10, G:0.14, T:0.12
Consensus pattern (29 bp):
ACAAGAACAAGAAAAAAGCAGAAAAATTA
Found at i:43442034 original size:9 final size:8
Alignment explanation
Indices: 43442017--43442071 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
43442007 TTAAATATAC
43442017 TTTATATT
1 TTTATATT
43442025 TTTATCATT
1 TTTAT-ATT
*
43442034 TTAATATTTT
1 TT--TATATT
*
43442044 TTTATACT
1 TTTATATT
43442052 TTTATATT
1 TTTATATT
*
43442060 TTTAAATT
1 TTTATATT
43442068 TTTA
1 TTTA
43442072 ATAAATTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 27 0.69
9 5 0.13
10 4 0.10
11 3 0.08
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTATATT
Found at i:43442045 original size:19 final size:18
Alignment explanation
Indices: 43442012--43442062 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
43442002 AATTTTTAAA
43442012 TATAC-TTTATA--TTTT
1 TATACTTTTATATTTTTT
43442027 TAT-CATTTTAATATTTTTT
1 TATAC-TTTT-ATATTTTTT
43442046 TATACTTTTATATTTTT
1 TATACTTTTATATTTTT
43442063 AAATTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.03
15 3 0.10
16 3 0.10
17 3 0.10
18 8 0.27
19 11 0.37
20 1 0.03
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TATACTTTTATATTTTTT
Found at i:43442047 original size:27 final size:26
Alignment explanation
Indices: 43442003--43442070 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
43441993 ATTTTATATA
** *
43442003 ATTTTTAAATATACTTTATATTTTTAT
1 ATTTTTAAAT-TTTTTTATACTTTTAT
**
43442030 CATTTTAATATTTTTTTATACTTTTAT
1 ATTTTTAA-ATTTTTTTATACTTTTAT
43442057 ATTTTTAAATTTTT
1 ATTTTTAAATTTTT
43442071 AATAAATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 25 0.76
28 2 0.06
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (26 bp):
ATTTTTAAATTTTTTTATACTTTTAT
Found at i:43442191 original size:29 final size:28
Alignment explanation
Indices: 43442119--43442213 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 28
43442109 TTTATAATTC
43442119 TTTTAT-ATTTTTCATAATATATTAATAATA
1 TTTTATAATTTTTCAT-A-AT-TTAATAATA
**
43442149 TTTTATAACATTTCATGAATTTAATACAT-
1 TTTTATAATTTTTCAT-AATTTAATA-ATA
*
43442178 TTTTATAATTTTTCTATAATTT-CTAA-A
1 TTTTATAATTTTTC-ATAATTTAATAATA
43442205 TTTTATAAT
1 TTTTATAAT
43442214 ATGTTTTATA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
27 10 0.18
28 2 0.04
29 23 0.42
30 12 0.22
31 8 0.15
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (28 bp):
TTTTATAATTTTTCATAATTTAATAATA
Found at i:43442274 original size:33 final size:31
Alignment explanation
Indices: 43442197--43442288 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 31
43442187 TTTTCTATAA
* * *
43442197 TTTCTAAATTTTATAATATGTTTTATATTTTT
1 TTTCTAAGTTTCATAATAT-TTTAATATTTTT
*
43442229 TTTCATATGTTTCATAATATATTTAATAATTTTT
1 TTTC-TAAGTTTCATAATAT-TTTAAT-ATTTTT
43442263 TTTCTAAGTTTCCTATAATATTTTAA
1 TTTCTAAGTTT-C-ATAATATTTTAA
43442289 CAAATTTAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
32 4 0.08
33 23 0.46
34 16 0.32
35 7 0.14
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (31 bp):
TTTCTAAGTTTCATAATATTTTAATATTTTT
Found at i:43442295 original size:35 final size:34
Alignment explanation
Indices: 43442223--43442295 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
43442213 TATGTTTTAT
* *
43442223 ATTTTTTTTCATATGTTTCATAATATATTTAATA
1 ATTTTTTTTCATAAGTTTCATAATATATTTAAAA
43442257 ATTTTTTTTC-TAAGTTTCCTATAATAT-TTTAACAA
1 ATTTTTTTTCATAAGTTT-C-ATAATATATTTAA-AA
43442292 ATTT
1 ATTT
43442296 AGGCTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 6 0.18
34 16 0.47
35 12 0.35
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (34 bp):
ATTTTTTTTCATAAGTTTCATAATATATTTAAAA
Found at i:43442959 original size:15 final size:15
Alignment explanation
Indices: 43442897--43442961 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
43442887 ATTATTGAAA
*
43442897 ATATTAAT-ATTAAT
1 ATATTAATAATAAAT
* *
43442911 ATTTTAATACTAAAT
1 ATATTAATAATAAAT
*
43442926 ATTTATTACAATTATAAAT
1 A--TATT--AATAATAAAT
43442945 ATATTAATAATAAAT
1 ATATTAATAATAAAT
43442960 AT
1 AT
43442962 TTTGTAGTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
14 7 0.18
15 16 0.41
17 7 0.18
19 9 0.23
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATTAATAATAAAT
Found at i:43449575 original size:11 final size:12
Alignment explanation
Indices: 43449546--43449587 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
43449536 AAAACTAAAA
*
43449546 AATAATAACTAT
1 AATAAAAACTAT
*
43449558 AAT-AAAACTTT
1 AATAAAAACTAT
43449569 AA-AAAAACTAT
1 AATAAAAACTAT
43449580 AATAAAAA
1 AATAAAAA
43449588 AAACACTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAAAAACTAT
Found at i:43449859 original size:21 final size:21
Alignment explanation
Indices: 43449818--43449860 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43449808 ACCCCAAACT
* *
43449818 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
43449839 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
43449860 C
1 C
43449861 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:43451255 original size:153 final size:154
Alignment explanation
Indices: 43450968--43451260 Score: 489
Period size: 154 Copynumber: 1.9 Consensus size: 154
43450958 GCTCTCCAAC
* * **
43450968 TTTTTAAAAATAGCAGTATTTCTTTAGTTTTTATATAGATGACGCCATTCTACATGGCTCCATTA
1 TTTTTAAAAATAGCAGTATTTCTCTAGTATTTATATAGATGACGCCATTCTACATGGCTCCACCA
*
43451033 AAAAAAGAAATTTTTTTATTGGGTTTCTTGATGTGGCATGTTGGTGGTGCCAAACTCTTTGGCTC
66 AAAAAAGAAATTTTTTTATTGGGTTTCTTGATGTGGCATGTTGGTGGTGCCAAACTCTATGGCTC
43451098 CACCAATTTTTACCTGAAATAATT
131 CACCAATTTTTACCTGAAATAATT
*
43451122 TTTTTAAAAATAGCAGTATTTCTCTAGTATTTATATAGGTGACGCCATTCTACATGGCTCCACCA
1 TTTTTAAAAATAGCAGTATTTCTCTAGTATTTATATAGATGACGCCATTCTACATGGCTCCACCA
* * * *
43451187 AAAAAA-TAATTTTTTTATTGGGTTTGTTGATGTGGGATGTTGGTGGTGCCAAATTCTATGGCTC
66 AAAAAAGAAATTTTTTTATTGGGTTTCTTGATGTGGCATGTTGGTGGTGCCAAACTCTATGGCTC
43451251 CACCAATTTT
131 CACCAATTTT
43451261 CACTATAGAT
Statistics
Matches: 129, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
153 63 0.49
154 66 0.51
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (154 bp):
TTTTTAAAAATAGCAGTATTTCTCTAGTATTTATATAGATGACGCCATTCTACATGGCTCCACCA
AAAAAAGAAATTTTTTTATTGGGTTTCTTGATGTGGCATGTTGGTGGTGCCAAACTCTATGGCTC
CACCAATTTTTACCTGAAATAATT
Found at i:43454843 original size:108 final size:106
Alignment explanation
Indices: 43454653--43454852 Score: 310
Period size: 108 Copynumber: 1.9 Consensus size: 106
43454643 TGGATTAAGA
* *
43454653 TTTAAGAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGGCTATTTGATCGAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
* *
43454718 CCTCAAATTTCCAAACGCAAAATATTGTCTTACTTCGAAAT
66 CCTCAAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
* *
43454759 TTTAAAAGGATATTTGGCTATTTGATCGAACGAGAAAAATCGAAACCTAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGATCGAACGAG--AAATCGAAACCCAGCACATTAGGGCACAT
* *
43454824 TTTCTCGAATCTCCAAACGCAAAACATTG
64 TTCCTCAAATCTCCAAACGCAAAACATTG
43454853 CCTTTATTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 32 0.38
108 52 0.62
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGATCGAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
CCTCAAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
Found at i:43461618 original size:28 final size:29
Alignment explanation
Indices: 43461570--43461635 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
43461560 CTGCTCTTAT
* *
43461570 TAAAAATTAGAAAAATTATTAAATTTTAA
1 TAAAAATTAGAAAAATAATTAAAATTTAA
*
43461599 TAAAAA-TATGAAAAA-AATTAAAATTTAT
1 TAAAAATTA-GAAAAATAATTAAAATTTAA
43461627 TAAAAATTA
1 TAAAAATTA
43461636 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 18 0.56
29 14 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (29 bp):
TAAAAATTAGAAAAATAATTAAAATTTAA
Found at i:43461628 original size:10 final size:10
Alignment explanation
Indices: 43461566--43461636 Score: 58
Period size: 10 Copynumber: 7.4 Consensus size: 10
43461556 AGTCCTGCTC
43461566 TTATTAAAAA
1 TTATTAAAAA
*
43461576 TTA-GAAAAA
1 TTATTAAAAA
**
43461585 TTATTAAATT
1 TTATTAAAAA
*
43461595 TTAATAAAAA
1 TTATTAAAAA
*
43461605 -TATGAAAAA
1 TTATTAAAAA
* *
43461614 -AATTAAAAT
1 TTATTAAAAA
43461623 TTATTAAAAA
1 TTATTAAAAA
43461633 TTAT
1 TTAT
43461637 AATTTTTTTT
Statistics
Matches: 45, Mismatches: 14, Indels: 4
0.71 0.22 0.06
Matches are distributed among these distances:
9 21 0.47
10 24 0.53
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:43461860 original size:10 final size:10
Alignment explanation
Indices: 43461841--43461877 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
43461831 TTTTGGAACG
43461841 ATAA-TTTTT
1 ATAATTTTTT
43461850 ATAATTTTTT
1 ATAATTTTTT
*
43461860 ATATTTTTTT
1 ATAATTTTTT
43461870 ATAATTTT
1 ATAATTTT
43461878 CTTACAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 4 0.16
10 21 0.84
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:43461942 original size:18 final size:18
Alignment explanation
Indices: 43461921--43461990 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
43461911 TTTCCATATA
43461921 TTTTATATTTTTTACGAT
1 TTTTATATTTTTTACGAT
*** *
43461939 TTTTATAAAATTTACAATTTT
1 TTTTATATTTTTTACGA---T
*
43461960 TTTTATATTTTTTACGGT
1 TTTTATATTTTTTACGAT
43461978 TTTTATATTTTTT
1 TTTTATATTTTTT
43461991 TTCTAATTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 27 0.68
21 13 0.32
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTTATATTTTTTACGAT
Found at i:43462179 original size:89 final size:90
Alignment explanation
Indices: 43462086--43462291 Score: 229
Period size: 89 Copynumber: 2.3 Consensus size: 90
43462076 AATTTTTAAT
* ** *
43462086 AAAAGCAGGGGTTTAATTGCTTTTTTTGAAAAAGCTTGA-GAGTTTTTTTGATGCATTTT-AAAA
1 AAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGCTTGACG-GCCTTTTTGATACATTTTGAAAA
* * *
43462149 GTTCAAGTACCCGATTGGGTGC-AAAA
65 -TTCAAGTACCCAAATGAGTGCAAAAA
* * * *
43462175 AAAAGTAGGGGCTTAATTGCTTTTTCTGAAAATGTTTGACGGCCTTTTTGATACATTTTGAAAAT
1 AAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGCTTGACGGCCTTTTTGATACATTTTGAAAAT
* *
43462240 TTAAGTACCTAAATGAGTGCAAAAA
66 TCAAGTACCCAAATGAGTGCAAAAA
* * *
43462265 AAAATCAAGGGCTTAATTGGTTTTTTT
1 AAAAGCAGGGGCTTAATTGCTTTTTTT
43462292 TTTTAAATGG
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
89 65 0.68
90 31 0.32
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (90 bp):
AAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGCTTGACGGCCTTTTTGATACATTTTGAAAAT
TCAAGTACCCAAATGAGTGCAAAAA
Found at i:43463201 original size:19 final size:19
Alignment explanation
Indices: 43463177--43463213 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
43463167 ATATATAATA
43463177 TAATTTTTTAAAATTATTT
1 TAATTTTTTAAAATTATTT
43463196 TAATTTTTTAAAATTATT
1 TAATTTTTTAAAATTATT
43463214 AAAATATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TAATTTTTTAAAATTATTT
Found at i:43463528 original size:31 final size:30
Alignment explanation
Indices: 43463471--43463529 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
43463461 ATAAATTTCA
*
43463471 AATTTATACACAAATTTTAATCCAATGTGC
1 AATTTATACACAAACTTTAATCCAATGTGC
* * *
43463501 AATTTAATACATAAACTTTGATTCAATGT
1 AATTT-ATACACAAACTTTAATCCAATGT
43463530 AATTAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (30 bp):
AATTTATACACAAACTTTAATCCAATGTGC
Found at i:43466182 original size:19 final size:18
Alignment explanation
Indices: 43466132--43466171 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
43466122 ATAAAATTAT
43466132 ATTTT-TATAATTTTAAC
1 ATTTTCTATAATTTTAAC
*
43466149 ATTTTCTATAATTTTAAT
1 ATTTTCTATAATTTTAAC
43466167 ATTTT
1 ATTTT
43466172 ATTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTCTATAATTTTAAC
Found at i:43467325 original size:12 final size:12
Alignment explanation
Indices: 43467310--43467339 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43467300 AAACATAATT
43467310 AATAAATTACTA
1 AATAAATTACTA
*
43467322 AATAAATTATTA
1 AATAAATTACTA
43467334 AATAAA
1 AATAAA
43467340 ATATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAAATTACTA
Found at i:43467939 original size:43 final size:43
Alignment explanation
Indices: 43467877--43468023 Score: 258
Period size: 43 Copynumber: 3.4 Consensus size: 43
43467867 CCTTGGATAA
*
43467877 GAGTTGTTCCCAAATAATGGTTATTTTGACTTACTCTAAACGT
1 GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
*
43467920 AAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
1 GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
43467963 GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
1 GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
*
43468006 GAGTTGTTCTCAATATAA
1 GAGTTGTTCCCAA-ATAA
43468024 AGGTCGAACA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
43 95 0.96
44 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (43 bp):
GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
Found at i:43469466 original size:16 final size:16
Alignment explanation
Indices: 43469413--43469472 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
43469403 ACTAAAACTT
43469413 TATTCTGAAC-ATAGC
1 TATTCTGAACAATAGC
* *
43469428 TATTCTCGAACAACAGT
1 TATTCT-GAACAATAGC
* *
43469445 TGTTCTGAACAATAAC
1 TATTCTGAACAATAGC
*
43469461 TATTCTAAACAA
1 TATTCTGAACAA
43469473 GAGTTATTAC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 6 0.17
16 21 0.60
17 8 0.23
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (16 bp):
TATTCTGAACAATAGC
Found at i:43469472 original size:32 final size:32
Alignment explanation
Indices: 43469415--43469477 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
43469405 TAAAACTTTA
* *
43469415 TTCTGAACATAGCTATTCTCGAACAACAGTTG
1 TTCTGAACATAACTATTCTCAAACAACAGTTG
*
43469447 TTCTGAACAATAACTATTCT-AAACAAGAGTT
1 TTCTGAAC-ATAACTATTCTCAAACAACAGTT
43469478 ATTACTCCGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTCTGAACATAACTATTCTCAAACAACAGTTG
Found at i:43471425 original size:19 final size:21
Alignment explanation
Indices: 43471393--43471437 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
43471383 TAAAAATATT
* *
43471393 AAATTTTAATAAAAA-ATTAA
1 AAATTTGAATAAAAATATAAA
43471413 AAATTTGAA-AAAAATATAAA
1 AAATTTGAATAAAAATATAAA
43471433 AAATT
1 AAATT
43471438 GTAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATTTGAATAAAAATATAAA
Found at i:43471443 original size:19 final size:18
Alignment explanation
Indices: 43471402--43471449 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
43471392 TAAATTTTAA
*
43471402 TAAAAAATTAAAAATTTG
1 TAAAAAATTAAAAAATTG
*
43471420 AAAAAAATATAAAAAATTG
1 TAAAAAAT-TAAAAAATTG
43471439 TAAAATAATTA
1 TAAAA-AATTA
43471450 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 15 0.60
20 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
TAAAAAATTAAAAAATTG
Found at i:43471519 original size:10 final size:10
Alignment explanation
Indices: 43471506--43471554 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
43471496 TATTAAAAAA
43471506 TTATAATTTT
1 TTATAATTTT
43471516 TTATAA-TTT
1 TTATAATTTT
***
43471525 TTATTGGTTT
1 TTATAATTTT
43471535 TTAT--TTTT
1 TTATAATTTT
43471543 TTATAATTTT
1 TTATAATTTT
43471553 TT
1 TT
43471555 GTCACATGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 7 0.21
9 7 0.21
10 19 0.58
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (10 bp):
TTATAATTTT
Found at i:43471847 original size:85 final size:85
Alignment explanation
Indices: 43471659--43471895 Score: 268
Period size: 85 Copynumber: 2.8 Consensus size: 85
43471649 CAAAGTACTC
* * * *
43471659 TTTTGATGCACTTTGACAGTTCAAGTGCCCAATTGAGTGCAAAAAAAATGACTTAATTGCTTTTT
1 TTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTG-AAAAAAAATGACTTAATGGCTTTTT
* *
43471724 TTGAAAAAAAGTTTGAGAGTCT
65 TTG-AAAAAAGTTTAAGAGCCT
* * *
43471746 TTTTTATGCATTTTGAAAGTTCAAGCACCTAATTGAGTG-AAAAAAATGAGCTTAATGGCTTTTA
1 TTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAATGA-CTTAATGGCTTTT-
43471810 TTTG-AAAAAGCTTTAAG-GCCT
64 TTTGAAAAAAG-TTTAAGAGCCT
* * * *
43471831 TTTTGATACATTTTGAAAATTCAAGTACCCAATTGAGTGTAAAAAAA--ACTTAATTGCTCTTTT
1 TTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAATGACTTAATGGCT-TTTT
43471894 TT
65 TT
43471896 TTTAAAGAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
83 12 0.09
84 4 0.03
85 53 0.41
86 24 0.18
87 37 0.28
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (85 bp):
TTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAATGACTTAATGGCTTTTTT
TGAAAAAAGTTTAAGAGCCT
Found at i:43472485 original size:28 final size:28
Alignment explanation
Indices: 43472444--43472573 Score: 99
Period size: 28 Copynumber: 4.6 Consensus size: 28
43472434 ATAAACATCA
*
43472444 ATAAAAATTATTAAAATTTAAT-AAAATT
1 ATAAAAAAT-TTAAAATTTAATAAAAATT
* * *
43472472 ATAACAATATTTAAATTTTATTAAAAATT
1 ATAA-AAAATTTAAAATTTAATAAAAATT
* *
43472501 A-GAAAAATATAAAAATTGTAA-AAAAA-T
1 ATAAAAAAT-TTAAAATT-TAATAAAAATT
*
43472528 ATAAAAAAGTGTAAAATGTT-ATAAAAATT
1 ATAAAAAA-TTTAAAAT-TTAATAAAAATT
43472557 ATAAAAAATTATAAAAT
1 ATAAAAAATT-TAAAAT
43472574 GCATCAAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
27 7 0.09
28 43 0.54
29 29 0.37
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.34
Consensus pattern (28 bp):
ATAAAAAATTTAAAATTTAATAAAAATT
Found at i:43472527 original size:19 final size:19
Alignment explanation
Indices: 43472503--43472572 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
43472493 TAAAAATTAG
43472503 AAAAATATAAAAATTGTAA
1 AAAAATATAAAAATTGTAA
*
43472522 AAAAATATAAAAAAGTGTAA
1 AAAAATAT-AAAAATTGTAA
*** *
43472542 AATGTTATAAAAATTATAA
1 AAAAATATAAAAATTGTAA
*
43472561 AAAATTATAAAA
1 AAAAATATAAAA
43472573 TGCATCAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 27 0.64
20 15 0.36
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (19 bp):
AAAAATATAAAAATTGTAA
Found at i:43472533 original size:9 final size:9
Alignment explanation
Indices: 43472494--43472572 Score: 52
Period size: 10 Copynumber: 8.3 Consensus size: 9
43472484 AAATTTTATT
43472494 AAAAAT-TA
1 AAAAATATA
43472502 GAAAAATATA
1 -AAAAATATA
* *
43472512 AAAATTGTAA
1 AAAAATAT-A
43472522 AAAAATATA
1 AAAAATATA
*
43472531 AAAAAGTGTA
1 AAAAA-TATA
**
43472541 AAATGTTATA
1 AAA-AATATA
*
43472551 AAAATTATA
1 AAAAATATA
43472560 AAAAATTATA
1 AAAAA-TATA
43472570 AAA
1 AAA
43472573 TGCATCAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
9 27 0.49
10 28 0.51
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (9 bp):
AAAAATATA
Found at i:43472574 original size:29 final size:27
Alignment explanation
Indices: 43472446--43472573 Score: 100
Period size: 29 Copynumber: 4.5 Consensus size: 27
43472436 AAACATCAAT
43472446 AAAAATTATTAAAATTTAATAAAATTATA
1 AAAAATTA-TAAAATTTAA-AAAATTATA
* * *
43472475 ACAATATT-TAAATTTTATTAAAAATTA-G
1 A-AAAATTATAAAATTTA--AAAAATTATA
*
43472503 AAAAA-TATAAAAATTGTAAAAAAATATA
1 AAAAATTAT-AAAATT-TAAAAAATTATA
* *
43472531 AAAAAGTGTAAAATGTTATAAAAATTATA
1 AAAAATTATAAAAT-TTA-AAAAATTATA
43472560 AAAAATTATAAAAT
1 AAAAATTATAAAAT
43472574 GCATCAAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
26 1 0.01
27 11 0.14
28 26 0.33
29 34 0.44
30 6 0.08
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAAATTATAAAATTTAAAAAATTATA
Found at i:43472582 original size:29 final size:29
Alignment explanation
Indices: 43472521--43472583 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
43472511 AAAAATTGTA
* *
43472521 AAAAAATATAAAAAAGTGTAAAATGTTAT
1 AAAAAATATAAAAAAGTATAAAATGTCAT
* *
43472550 AAAAATTATAAAAAATTATAAAATG-CAT
1 AAAAAATATAAAAAAGTATAAAATGTCAT
*
43472578 CAAAAA
1 AAAAAA
43472584 GGTCCTTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (29 bp):
AAAAAATATAAAAAAGTATAAAATGTCAT
Found at i:43472766 original size:20 final size:19
Alignment explanation
Indices: 43472741--43472797 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
43472731 GCATGATAAT
43472741 TTTTATAGTTTTTTTATGAA
1 TTTTATA-TTTTTTTATGAA
* *
43472761 TTTTATATTTCTTTAT-AT
1 TTTTATATTTTTTTATGAA
*
43472779 TTTTATAATTTTCTTATGA
1 TTTTAT-ATTTTTTTATGA
43472798 CTATAAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 7 0.23
19 16 0.52
20 8 0.26
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTATATTTTTTTATGAA
Done.